GeneSpring gene lists - ANOVA2 parametric test, assume variances equalfirst parameter: experiment type (SD or CT) - second parameter: genotype (AK, D2 or B6)gene list: union AKorD2orB6_IorD_9out9 I: Increased; D: Decreased

eulav PegnahCnoisseccAnoitpircseD eneGlobmyS eneGDI xirtemyffA70-E16.3ABD-RKA-I78277Cahpla ,1 nietorp kcohs taeh2.3D582-32PRta_a_209834170-E37.3RKA-I088710KAeneg 12L2950375 ANDc NEKIR2dlerCta_457254160-E54.5ABD-RKA-I740970UAahpla ,1 nietorp kcohs taeh1aa09psHta_546624160-E58.7ABD-RKA-I48377Cahpla ,1 nietorp kcohs taeh1aa09psHta_a_7947341

1429206_at Rhobtb1 Rho-related BTB domain containing 1 AK014194 I-C57 4.61E-051427464_s_at Hspa5 heat shock 70kD protein 5 (glucose-regulated protein) AJ002387 I-AKR 6.05E-05

1455789_x_at Hspa8 BB453676 RIKEN full-length enriched, 12 days embryo spinal ganglion Mus musculus cDNA clone BB453676 I 1.21E-04

40-E44.2RKA-I616882VAeneg 91J2443384 ANDc NEKIRkiR91J2443384ta_51975411428112_at Armet arginine-rich, mutated in early stage tumors AK014338 I-AKR 3.97E-04

40-E23.4RKA-I964286FBeneg 80A4100142 ANDc NEKIR1b8dCta_965844140-E00.6I367510_MN1 nipil1nipLta_882814140-E20.6ABD-I627331_MN31 yticinegiromut fo noisserppus31tSta_3910641

1460241_a_at St3gal5 sialyltransferase 9 (CMP-NeuAc:lactosylceramide alpha-2,3-sialyltransferase) BB829192 I-DBA-C57 1.05E-03

30-E22.1ABD-I354002EBsecneuqes debircsnarT---ta_203854130-E42.1RKA-I230860BB2 ekil 4 rotcaf ytilatrom2l4froMta_x_347654130-E92.175C-D793766BBun ,C esanik nietorpnckrPta_1964441

1427302_at Enpp3 ectonucleotide pyrophosphatase/phosphodiesterase 3 AV224446 D-AKR 1.43E-0330-E84.175C-D033800_MN65 rotpecer yrotcaflo74ifIta_292714130-E45.1RKA-I867910_MN2 ekil 4 rotcaf ytilatrom2l4froMta_8775141

1422660_at Rbm3 RBM3; Mus musculus RNA-binding motif protein 3 mRNA, complete cds. AY052560 D-AKR-DBA 1.73E-03

30-E37.175C-RKA-I625410KA1 nipil1nipLta_a_615624130-E92.2I717994IB501 nietorp kcohs taeh011psHta_a_665324130-E83.275C-I290766BBeneg 12K4000031 ANDc NEKIR82crrLta_858334130-E84.275C-I725842MB2 rebmem ,83 ylimaf reirrac etulos2a83clSta_2276241

1423151_at Dnajb11 DnaJ (Hsp40) homolog, subfamily B, member 11 AK010861 I-AKR 2.52E-0330-E59.2RKA-I924597BBeneg 51D9100061 ANDc NEKIR33memTta_8206341

1416064_a_at Hspa5 heat shock 70kD protein 5 (glucose-regulated protein) NM_022310 I-AKR 3.05E-03

1460645_at Chordc1 cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 NM_025844 I 3.37E-03

30-E54.375C-I290400CBnietorp gnidnib A1SN suriv azneulfnipba1snvIta_a_817524130-E05.3RKA-I460824JA7 nietorp enarbmemsnart3ptRta_274254130-E56.3RKA-D567979EBsecneuqes debircsnarT9hdRta_s_3697241

1416418_at Gabarapl1 gamma-aminobutyric acid (GABA(A)) receptor-associated protein-like 1 AF180518 I-DBA 3.95E-03

30-E52.4I71076D501 nietorp kcohs taeh011psHta_a_399524130-E84.475C-I494910CBeneg 40C5100181 ANDc NEKIRkiR40C5100181ta_386424130-E65.4RKA-I447700_MNesarefsnartlyhtem-O-lohcetactmoCta_3819441

1417057_a_at Lamp3 peptidylprolyl isomerase D (cyclophilin D) BC011499 I-AKR 4.62E-0330-E80.5ABD-RKA-I737610_MN1 nietorpohpsohp decudni-sserts1pitSta_9095141

1417161_at Cdk2ap2 DNA segment, Chr 19, ERATO Doi 144, expressed NM_026373 I-AKR 5.27E-031460240_a_at Hnrpc heterogeneous nuclear ribonucleoprotein C NM_016884 I-AKR-DBA 5.39E-03

30-E35.5ABD-I413641WA2 esalyrohpsohporyp esoculg-PDU2pgUta_x_684434130-E26.5RKA-I711610CBeneg 51F0100152 ANDc NEKIRf2ebUta_a_272154130-E36.5RKA-I16530U1 nietorp kcohs taeh1bpsHta_x_469524130-E78.575C-I007036EBeneg 42K1000113 ANDc NEKIRkiR42K1000113ta_456734130-E60.675C-I667697AA2 nienoihtollatem2tMta_249824130-E72.6ABD-D971800KA1 nietorp gnidnib AND-Z1pbZta_a_749924130-E56.675C-D707210CB2 ateht ,esarefsnart-S enoihtatulg2ttsGta_3887141

1449198_a_at St3gal5 sialyltransferase 9 (CMP-NeuAc:lactosylceramide alpha-2,3-sialyltransferase) BB829192 I-DBA-C57 7.81E-03

1427035_at Slc39a14 solute carrier family 39 (zinc transporter), member 14 BB399837 I-C57 8.33E-0330-E35.9ABD-D975110_MNesaPTG cificeps llec-TptgTta_9009441

1448721_at D1ERTD622E DNA segment, Chr 1, ERATO Doi 622, expressed NM_133825 I-C57 0.01035010.0RKA-I627110_MNa3 detaluger-etycohpmyl deknil-Xa3rlXta_s_75302417010.0RKA-I274710_MN3 nixen gnitros3xnsta_08422412110.075C-D646810KAeneg 31K2200319 ANDc NEKIRkiR31K2200319ta_0803541

1434153_at Shb src homology 2 domain-containing transforming protein B BI408715 I-C57 0.0112

1434437_x_at Rrm2 AV301324 RIKEN full-length enriched, 8 days embryo Mus musculus cDNA clone 5730492P22 3' AV301324 I-C57 0.0115

7110.0RKA-I020110_MNnietorp sserts citomsol4apsHta_a_35281411427660_x_at Igk immunoglobulin kappa chain variable 8 (V8) BC013496 I-C57 0.0119

1210.075C-I954520_MNeneg 40C5100181 ANDc NEKIRkiR40C5100181ta_a_5050541

1432543_a_at Klf13unnamed protein product; Kruppel-like factor 13 (MGD|MGI:1354948, GB|NM_021366, evidence: BLASTN, 100%, match=291) putative

AK002926 I-C57 0.0123

4210.0RKA-I063520_MNeneg 31G2000021 ANDc NEKIR3demTta_a_80161414210.0ABD-RKA-I741451IBateb ,1 nietorp kcohs taehbcpsHta_5636141

1423233_at Cebpd CCAAT/enhancer binding protein (C/EBP), delta BB831146 I-C57 0.0126

1452417_x_at Igk AV057155 Mus musculus pancreas C57BL/6J adult Mus musculus cDNA clone 1810044K02, mRNA sequence. AV057155 I-C57 0.0134

1425142_a_at Hnrpd heterogeneous nuclear ribonucleoprotein D BC011172 D-DBA 0.0139

Table 2. 2 way-ANOVA interaction in the liver (123 probe sets)

SI Table2_1

Affymetrix ID Gene Symbol Gene Description Accession Change P value1417574_at Cxcl12 chemokine (C-X-C motif) ligand 12 NM_013655 D-AKR 0.0145

1442025_a_at Zbtb16 Similar to mPLZF(B)=promyelocytic leukemia zinc finger protein {alternatively spliced} (LOC235320), mRNA AI467657 I-C57 0.0146

1459987_s_at Cct3 chaperonin subunit 3 (gamma) NM_009836 I-AKR 0.01501451742_a_at Ugp2 UDP-glucose pyrophosphorylase 2 AF424698 I-DBA 0.01551456170_x_at Calr calreticulin AW544960 I-AKR 0.01581443609_s_at Syvn1 mitochondrial ribosomal protein L49 C85322 I-AKR 0.01601417998_at Ptges3 telomerase binding protein, p23 BC003708 I-AKR 0.0161

1428083_at 2310043N10RikAdult male cecum cDNA, RIKEN full-length enriched library, clone:9130009H04 product:unknown EST, full insert sequence

AK018202 D-DBA 0.0162

1448657_a_at Dnajb10 DnaJ (Hsp40) homolog, subfamily B, member 10 NM_020266 I-AKR 0.0182

1433806_x_at Calruo21h03.x1 NCI_CGAP_Mam6 Mus musculus cDNA clone IMAGE:2609813 3' similar to gb:X14926 Mouse mRNA for calreticulin (MOUSE);, mRNA sequence.

AW324084 I-AKR 0.0183

1415723_at Eif5 eukaryotic translation initiation factor 5 BQ176989 D-AKR 0.01841449385_at Hsd17b9 hydroxysteroid (17-beta) dehydrogenase 9 NM_013786 D-AKR 0.02021419393_at Abcg5 ATP-binding cassette, sub-family G (WHITE), member 5 NM_031884 D-AKR 0.0216

1417061_at Slc40a1 solute carrier family 40 (iron-regulated transporter), member 1 AF226613 D-AKR 0.0221

1439413_x_at Morf4l2Transcribed sequence with weak similarity to protein pir:A43932 (H.sapiens) A43932 mucin 2 precursor, intestinal - human

AV094989 I-AKR 0.0223

1450084_s_at Ivns1abp influenza virus NS1A binding protein NM_054102 I-C57 0.02341428223_at Mfsd2 RIKEN cDNA 1700018O18 gene AK006096 I-C57 0.0245

1437171_x_at Gsn gelsolin AV025667 I-C57 0.02591417013_at Hspb8 heat shock 27kDa protein 8 AF250139 I-AKR-C57 0.02601416497_at Pdia4 calcium binding protein, intestinal J05186 I-AKR 0.02601460179_at Dnaja1 DnaJ (Hsp40) homolog, subfamily A, member 1 BF141076 I-AKR 0.02611424296_at Gclc glutamate-cysteine ligase, catalytic subunit BC019374 D-AKR 0.02731449051_at Ppara peroxisome proliferator activated receptor alpha BC016892 D-AKR 0.0277

1416362_a_at Fkbp4 FK506 binding protein 4 BB456860 I-AKR-DBA 0.0277

1452406_x_at Erdr1 DNA segment, Chr 14, Wayne State University 89, expressed AJ007909 I-AKR 0.0291

1435160_at 1110064P04Rik RIKEN cDNA 1110064P04 gene BM120737 I-AKR 0.02921422943_a_at Hspb1 heat shock protein 1 NM_013560 I-AKR 0.02941426485_at Ubxd2 UBX domain containing 2 AI788596 I-AKR 0.03011423642_at Tubb2c RIKEN cDNA 4930542G03 gene BC005547 I-AKR 0.03061448950_at Il1r1 interleukin 1 receptor, type I NM_008362 I-C57 0.03151416405_at Bgn biglycan BC019502 I-C57 0.03151429418_at Cdc14b CDC14 cell division cycle 14 homolog B (S. cerevisiae) AK013228 D-AKR 0.0319

1425921_a_at 1810055G02Rik RIKEN cDNA 1810055G02 gene BC019471 I-C57 0.0330

1456960_at Adk2 days pregnant adult female ovary cDNA, RIKEN full-length enriched library, clone:E330016N04 product:unknown EST, full insert sequence

BB555069 I-AKR 0.0334

1455958_s_at Pptc7 RIKEN cDNA 9130017A15 gene AI881989 I-C57 0.0335

1435691_at C630028N24RikES cells cDNA, RIKEN full-length enriched library, clone:C330021I02 product:unknown EST, full insert sequence

BB209207 I-DBA 0.0341

1450641_at Vim vimentin M24849 I-C57 0.03421453851_a_at Gadd45g growth arrest and DNA-damage-inducible 45 gamma AK007410 D-AKR 0.03471428070_at Syvn1 RIKEN cDNA 1200010C09 gene AK004688 I-AKR 0.0352

1420603_s_at Raet1e retinoic acid early transcript gamma NM_009016 I-DBA 0.03541417707_at B230342M21Rik RIKEN cDNA B230342M21 gene NM_133898 I-DBA 0.0356

1442051_at Hist1h3dTranscribed sequence with strong similarity to protein ref:NP_003527.1 (H.sapiens) H3 histone family, member K [Homo sapiens]

BE691662 I-AKR 0.0368

1455007_s_at Gpt2 RIKEN cDNA 4631422C05 gene BI648645 I-C57 0.03741424937_at 2310076L09Rik RIKEN cDNA 2310076L09 gene BC024138 I-C57 0.03811448741_at Slc3a1 solute carrier family 3, member 1 NM_009205 D-AKR 0.0385

1448162_at Vcam1

BB250384 RIKEN full-length enriched, 7 days neonate cerebellum Mus musculus cDNA clone A730041B10 3' similar to M84487 Mouse vascular cell adhesion molecule1 mRNA

BB250384 I-C57 0.0395

1452047_at Cacybp calcyclin binding protein AK013924 I-AKR-DBA 0.04071456074_at Sdro orphan short chain dehydrogenase/reductase BB143568 I-DBA 0.04111419318_at Saa4 serum amyloid A 4 NM_011316 I-C57 0.04161416125_at Fkbp5 FK506 binding protein 5 U16959 I-C57 0.04211460172_at 5730403B10Rik RIKEN cDNA 5730403B10 gene NM_025670 I-AKR-C57 0.0425

1417339_a_at Dynll1 dynein, cytoplasmic, light chain 1 NM_019682 I-AKR 0.04451454606_at 4933426M11Rik RIKEN cDNA 4933426M11 gene BF144564 I-C57 0.04461431916_at 9030618K22Rik hydroxysteroid dehydrogenase-3, delta<5>-3-beta AK018558 D-C57 0.0449

1426664_x_at Slc45a3 RIKEN cDNA 2210413P12 gene BC024519 I-C57 0.04611417370_at Tff3 trefoil factor 3, intestinal NM_011575 D-AKR 0.04651455002_at Ptp4a1 protein tyrosine phosphatase 4a1 AV331223 I-C57 0.04681417274_at Snrpa small nuclear ribonucleoprotein polypeptide A NM_015782 I-AKR 0.04751455047_at Fbx03 F-box only protein 3 AV024918 D-AKR 0.0499

SI Table2_2